ArticleBMC bioinformatics2019
GeNeCK: a web server for gene network construction and visualization.
Article in BMC bioinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
What it found
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
24 citing papers in PubMed.
- NetCrafter: ontology-derived gene network modeling and functional interpretation.Briefings in bioinformatics · 2026Article
- Comprehensive big data analysis reveals SLC10A3 as a potential biomarker in head and neck cancer.Naunyn-Schmiedeberg's archives of pharmacology · 2026Article
- Chromatin accessibility in stem cells unveils progressive transcriptional alterations in myelodysplastic syndrome.Nature communications · 2025Article
- Navigating the challenges of engineering composite specialized metabolite pathways in plants.The Plant journal : for cell and molecular biology · 2025Review
- Evaluation of extra virgin olive oil compounds using computational methods: in vitro, ADMET, DFT, molecular docking and human gene network analysis study.BMC chemistry · 2025Article
- Multioviz: an interactive platform for in silico perturbation and interrogation of gene regulatory networks.BMC bioinformatics · 2024Article
- bulkAnalyseR: an accessible, interactive pipeline for analysing and sharing bulk multi-modal sequencing data.Briefings in bioinformatics · 2023Article
- Mathematical modeling of regulatory networks of intracellular processes - Aims and selected methods.Computational and structural biotechnology journal · 2023Review
- Review
- Review and assessment of Boolean approaches for inference of gene regulatory networks.Heliyon · 2022Review
- NETISCE: a network-based tool for cell fate reprogramming.NPJ systems biology and applications · 2022Article
- Gene expression data of inflammatory mediators in apical periodontitis in 129 (wild type) and 5-lipoxygenase knockout mice.Data in brief · 2022Article
- Differential Expression of Genes Regulating Store-operated Calcium Entry in Conjunction With Mitochondrial Dynamics as Potential Biomarkers for Cancer: A Single-Cell RNA Analysis.Frontiers in genetics · 2022Article
- Angiogenesis goes computational - The future way forward to discover new angiogenic targets?Computational and structural biotechnology journal · 2022Review
- MODalyseR-a novel software for inference of disease module hub regulators identified a putative multiple sclerosis regulator supported by independent eQTL data.Bioinformatics advances · 2022Article
- Tailored graphical lasso for data integration in gene network reconstruction.BMC bioinformatics · 2021Article
- Inferring and analyzing gene regulatory networks from multi-factorial expression data: a complete and interactive suite.BMC genomics · 2021Article
- A deep learning-based model for screening and staging pneumoconiosis.Scientific reports · 2021Article
- A Web Tool for Consensus Gene Regulatory Network Construction.Frontiers in genetics · 2021Article
- In silico-driven analysis of thePeerJ · 2021Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
backgroundReverse engineering approaches to infer gene regulatory networks using computational methods are of great importance to annotate gene functionality and identify hub genes. Although various statistical algorithms have been proposed, development of computational tools to integrate results from different methods and user-friendly online tools is still lagging.
resultsWe developed a web server that efficiently constructs gene networks from expression data. It allows the user to use ten different network construction methods (such as partial correlation-, likelihood-, Bayesian- and mutual information-based methods) and integrates the resulting networks from multiple methods. Hub gene information, if available, can be incorporated to enhance performance.
conclusionsGeNeCK is an efficient and easy-to-use web application for gene regulatory network construction. It can be accessed at http://lce.biohpc.swmed.edu/geneck .
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.